RNA 3D Hub //

Motif HL_98995.2 Version HL_98995.2 of this group appears in releases 3.3 to 3.11

#SLoop idPDBDisc#Non-coreAnnotationChain(s)Standardized name 1 2 3 4 5 61-6
1 HL_4IOA_0364IOA0.74981Pseudoknot geometry with 3' bulge (H)X LSU rRNAG1508A1509A1510A1511A1512C1514cWW
2 HL_1U6B_0021U6B0.56670Pseudoknot geometryB197-MERC70G71C72C73C74G75cWW
3 HL_4PQV_0024PQV0.39611Pseudoknot geometryAFlavivirus 3' UTR stem loop IVC28G29C30C31G32G34cWW
4 HL_4IOA_0644IOA0.21970Ribsomal LSU H95 (H)X LSU rRNAU2680A2681C2682C2683A2684A2685cWW
5 HL_5J7L_1985J7L0.25340Ribsomal LSU H95DA LSU rRNAU2701G2702C2703C2704A2705A2706cWW
6 HL_4WF9_0614WF90.21450Ribsomal LSU H95X LSU rRNAU2728G2729C2730C2731A2732A2733cWW
7 HL_4V8P_1494V8P0.00000Ribsomal LSU H95 (H)D1 LSU rRNAU3057G3058A3059A3060A3061A3062cWW
8 HL_5TBW_0665TBW0.16960Ribsomal LSU H951 LSU rRNAU3068G3069A3070U3071C3072A3073cWW
9 HL_4V9F_0674V9F0.20320Ribsomal LSU H950 LSU rRNAC2737G2738A2739G2740A2741G2742cWW
10 HL_2NR0_0032NR00.59000Eleucyl tRNAC45|||DA45|||EA45|||FU45|||GA45|||HG46|||IcWW

3D structures

Complete motif including flanking bases
SequenceCounts
UGCCAA2
GAAAAUC1
CGCCCG1
CGCCGAG1
UACCAA1
UGAAAA1
UGAUCA1
CGAGAG1
CAAUAG1
Non-Watson-Crick part of the motif
SequenceCounts
GCCA2
AAAAU1
GCCC1
GCCGA1
ACCA1
GAAA1
GAUC1
GAGA1
AAUA1

Release history

Release3.33.43.53.63.73.83.93.103.11
Date2018-03-082018-04-062018-05-042018-06-012018-06-292018-07-272018-08-242018-09-212018-10-19
StatusUpdated, 1 parentExact matchExact matchExact matchExact matchExact matchExact matchExact matchExact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.
Annotations
  • Ribsomal LSU H95 (4)
  • Pseudoknot geometry (2)
  • Ribsomal LSU H95 (H) (2)
  • (1)
  • Pseudoknot geometry with 3' bulge (H) (1)
    • Basepair signature
    cWW-R-R-R
    Heat map statistics
    Min 0.12 | Avg 0.44 | Max 0.84
    Help

    Coloring options:

    HL_4IOA_036:HL_4IOA_036 = 0HL_4IOA_036:HL_1U6B_002 = 0.7632HL_4IOA_036:HL_4PQV_002 = 0.7082HL_4IOA_036:HL_4IOA_064 = 0.771HL_4IOA_036:HL_5J7L_198 = 0.8426HL_4IOA_036:HL_4WF9_061 = 0.7994HL_4IOA_036:HL_4V8P_149 = 0.7498HL_4IOA_036:HL_5TBW_066 = 0.711HL_4IOA_036:HL_4V9F_067 = 0.8295HL_4IOA_036:HL_2NR0_003 = 0.8101HL_1U6B_002:HL_4IOA_036 = 0.7632HL_1U6B_002:HL_1U6B_002 = 0HL_1U6B_002:HL_4PQV_002 = 0.6422HL_1U6B_002:HL_4IOA_064 = 0.5563HL_1U6B_002:HL_5J7L_198 = 0.5719HL_1U6B_002:HL_4WF9_061 = 0.5221HL_1U6B_002:HL_4V8P_149 = 0.5667HL_1U6B_002:HL_5TBW_066 = 0.5469HL_1U6B_002:HL_4V9F_067 = 0.5702HL_1U6B_002:HL_2NR0_003 = 0.7882HL_4PQV_002:HL_4IOA_036 = 0.7082HL_4PQV_002:HL_1U6B_002 = 0.6422HL_4PQV_002:HL_4PQV_002 = 0HL_4PQV_002:HL_4IOA_064 = 0.4116HL_4PQV_002:HL_5J7L_198 = 0.4124HL_4PQV_002:HL_4WF9_061 = 0.4278HL_4PQV_002:HL_4V8P_149 = 0.3961HL_4PQV_002:HL_5TBW_066 = 0.4577HL_4PQV_002:HL_4V9F_067 = 0.4683HL_4PQV_002:HL_2NR0_003 = 0.6831HL_4IOA_064:HL_4IOA_036 = 0.771HL_4IOA_064:HL_1U6B_002 = 0.5563HL_4IOA_064:HL_4PQV_002 = 0.4116HL_4IOA_064:HL_4IOA_064 = 0HL_4IOA_064:HL_5J7L_198 = 0.1231HL_4IOA_064:HL_4WF9_061 = 0.1819HL_4IOA_064:HL_4V8P_149 = 0.2197HL_4IOA_064:HL_5TBW_066 = 0.249HL_4IOA_064:HL_4V9F_067 = 0.2528HL_4IOA_064:HL_2NR0_003 = 0.6291HL_5J7L_198:HL_4IOA_036 = 0.8426HL_5J7L_198:HL_1U6B_002 = 0.5719HL_5J7L_198:HL_4PQV_002 = 0.4124HL_5J7L_198:HL_4IOA_064 = 0.1231HL_5J7L_198:HL_5J7L_198 = 0HL_5J7L_198:HL_4WF9_061 = 0.1606HL_5J7L_198:HL_4V8P_149 = 0.2534HL_5J7L_198:HL_5TBW_066 = 0.3104HL_5J7L_198:HL_4V9F_067 = 0.2737HL_5J7L_198:HL_2NR0_003 = 0.6543HL_4WF9_061:HL_4IOA_036 = 0.7994HL_4WF9_061:HL_1U6B_002 = 0.5221HL_4WF9_061:HL_4PQV_002 = 0.4278HL_4WF9_061:HL_4IOA_064 = 0.1819HL_4WF9_061:HL_5J7L_198 = 0.1606HL_4WF9_061:HL_4WF9_061 = 0HL_4WF9_061:HL_4V8P_149 = 0.2145HL_4WF9_061:HL_5TBW_066 = 0.2733HL_4WF9_061:HL_4V9F_067 = 0.2689HL_4WF9_061:HL_2NR0_003 = 0.6379HL_4V8P_149:HL_4IOA_036 = 0.7498HL_4V8P_149:HL_1U6B_002 = 0.5667HL_4V8P_149:HL_4PQV_002 = 0.3961HL_4V8P_149:HL_4IOA_064 = 0.2197HL_4V8P_149:HL_5J7L_198 = 0.2534HL_4V8P_149:HL_4WF9_061 = 0.2145HL_4V8P_149:HL_4V8P_149 = 0HL_4V8P_149:HL_5TBW_066 = 0.1696HL_4V8P_149:HL_4V9F_067 = 0.2032HL_4V8P_149:HL_2NR0_003 = 0.59HL_5TBW_066:HL_4IOA_036 = 0.711HL_5TBW_066:HL_1U6B_002 = 0.5469HL_5TBW_066:HL_4PQV_002 = 0.4577HL_5TBW_066:HL_4IOA_064 = 0.249HL_5TBW_066:HL_5J7L_198 = 0.3104HL_5TBW_066:HL_4WF9_061 = 0.2733HL_5TBW_066:HL_4V8P_149 = 0.1696HL_5TBW_066:HL_5TBW_066 = 0HL_5TBW_066:HL_4V9F_067 = 0.2227HL_5TBW_066:HL_2NR0_003 = 0.6128HL_4V9F_067:HL_4IOA_036 = 0.8295HL_4V9F_067:HL_1U6B_002 = 0.5702HL_4V9F_067:HL_4PQV_002 = 0.4683HL_4V9F_067:HL_4IOA_064 = 0.2528HL_4V9F_067:HL_5J7L_198 = 0.2737HL_4V9F_067:HL_4WF9_061 = 0.2689HL_4V9F_067:HL_4V8P_149 = 0.2032HL_4V9F_067:HL_5TBW_066 = 0.2227HL_4V9F_067:HL_4V9F_067 = 0HL_4V9F_067:HL_2NR0_003 = 0.5612HL_2NR0_003:HL_4IOA_036 = 0.8101HL_2NR0_003:HL_1U6B_002 = 0.7882HL_2NR0_003:HL_4PQV_002 = 0.6831HL_2NR0_003:HL_4IOA_064 = 0.6291HL_2NR0_003:HL_5J7L_198 = 0.6543HL_2NR0_003:HL_4WF9_061 = 0.6379HL_2NR0_003:HL_4V8P_149 = 0.59HL_2NR0_003:HL_5TBW_066 = 0.6128HL_2NR0_003:HL_4V9F_067 = 0.5612HL_2NR0_003:HL_2NR0_003 = 0HL_4IOA_036HL_1U6B_002HL_4PQV_002HL_4IOA_064HL_5J7L_198HL_4WF9_061HL_4V8P_149HL_5TBW_066HL_4V9F_067HL_2NR0_003Discrepancy0.000.200.400.600.80
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